Stats by Source
Total, split by cell line (COSMIC CL / DepMap / PubMed) vs tissue (COSMIC primary tissue)
Total = all mutations for this gene across every source.
Cell line = COSMIC Cell Lines Project + DepMap + PubMed.
Tissue = COSMIC primary-tissue (patient tumour) samples.
Total can exceed cell line + tissue: COSMIC tissue-derived models sit only in global, and a peptide can be shared across both.
| Total | Cell line | Tissue | |
|---|---|---|---|
| Mutations | 11,589 | 1,000 | 10,464 |
| Samples | 1,112 | 163 | 937 |
| Peptides | 843 | 142 | 737 |
Function
CHD4 · Chromodomain helicase DNA binding protein 4
The product of this gene belongs to the SNF2/RAD54 helicase family. It represents the main component of the nucleosome remodeling and deacetylase complex and plays an important role in epigenetic transcriptional repression. Patients with dermatomyositis develop antibodies against this protein. Somatic mutations in this gene are associated with serous endometrial tumors. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2014].
Isoforms & Proteins
10 transcripts · UniProt mapping is sequence-verified (AA-safe)
Each Ensembl transcript (ENST) this gene is mutated on, with its matched UniProt accession.
The mapping is sequence-verified: the UniProt sequence is identical to the transcript translation, so amino-acid positions line up exactly. A * marks an unreviewed (TrEMBL) entry.
Counts are mutations and unique mutant peptides on each transcript.
| Transcript | UniProt | Mutations | Peptides |
|---|---|---|---|
| ENST00000544040 | Q14839 | 1,278 | 782 |
| ENST00000544484 | A0A0C4DGG9* | 1,159 | 752 |
| ENST00000645095 | Q14839-2 | 1,159 | 752 |
| ENST00000642879 | A0A2R8Y521* | 1,150 | 743 |
| ENST00000645005 | A0A2R8Y212* | 1,145 | 741 |
| ENST00000643335 | A0A2R8YFD8* | 1,141 | 737 |
| ENST00000645022 | F5GWX5* | 1,141 | 737 |
| ENST00000357008 | A0A2U3TZM0* | 1,140 | 736 |
| ENST00000645645 | A0A2R8YFK9* | 1,140 | 736 |
| ENST00000646806 | A0A2R8Y5J0* | 1,136 | 732 |
Gene Properties
Recurrent Mutations
All 782 amino-acid changes on canonical ENST00000544040 · needle height = samples · drag the mini-map to zoom
A lollipop / needle plot – the standard way to show recurrent mutations along a protein (as used by cBioPortal and MutationMapper).
X-axis = amino-acid position in the protein.
Needle height & head size = how often that exact amino-acid change was observed (its recurrence). Tall/large heads are mutational hotspots.
The most recurrent changes are labelled; hover any needle for the change, position and counts.
Mutation frequency across cancer types
% of samples with a missense/complex mutation in CHD4 · cell line vs tissue
For each cancer type, the fraction of samples that carry at least one missense/complex mutation anywhere in CHD4 – counted as distinct samples (a sample counts once no matter how many mutations it has).
Split into cell line and tissue; each cell shows mutated / total and the percentage. Cohorts with <20 samples are omitted. Ordered by combined frequency.
| Cancer type | Cell lines | Tissue samples |
|---|---|---|
| T-Lymphoblastic Leukemia | 14/40 35% | 0/0 0% |
| Endometrial Carcinoma | 14/42 33% | 110/612 18% |
| Chronic Myelogenous Leukemia | 4/25 16% | 0/0 0% |
| T-Cell Non-Hodgkins Lymphoma | 2/26 8% | 0/0 0% |
| Glioblastoma | 7/98 7% | 0/0 0% |
| Colorectal Carcinoma | 25/143 17% | 162/3239 5% |
| Rhabdomyosarcoma | 0/33 0% | 10/171 6% |
| Acute Myeloid Leukemia | 4/90 4% | 0/0 0% |
| Gastric Carcinoma | 3/74 4% | 79/1809 4% |
| Melanoma | 7/210 3% | 78/1899 4% |
| Gastrointestinal Stromal Tumour | 0/0 0% | 5/133 4% |
| Bladder Carcinoma | 3/58 5% | 35/956 4% |
| Oral Cavity Carcinoma | 2/54 4% | 0/0 0% |
| Cervical Carcinoma | 0/35 0% | 16/422 4% |
| Ovarian Carcinoma | 9/109 8% | 24/998 2% |
| Hodgkins Lymphoma | 2/16 12% | 2/122 2% |
| Germ Cell Tumour | 0/25 0% | 5/169 3% |
| Thymic Epithelial Tumor | 0/0 0% | 1/39 3% |
| Non-Cancerous | 1/104 1% | 22/830 3% |
| Non-Small Cell Lung Carcinoma | 9/304 3% | 31/1390 2% |
| Other Solid Cancers | 1/94 1% | 35/1515 2% |
| Other Sarcomas | 4/69 6% | 12/699 2% |
| Neuroendocrine Tumour | 6/154 4% | 8/577 1% |
| Squamous Cell Lung Carcinoma | 0/57 0% | 16/810 2% |
| Head and Neck Carcinoma | 3/85 4% | 23/1574 1% |
| Breast Carcinoma | 8/144 6% | 45/3264 1% |
| Esophageal Squamous Cell Carcinoma | 5/51 10% | 32/2550 1% |
| Pheochromocytoma and Paraganglioma | 0/0 0% | 1/71 1% |
| Burkitts Lymphoma | 2/32 6% | 1/196 1% |
| B-Lymphoblastic Leukemia | 6/55 11% | 29/2640 1% |
Mutation Distribution
Where CHD4 is mutated · all tissues, split by cell line vs tissue
How many mutations in CHD4 were found in each tissue, across the whole database.
Each bar is a tissue (cell-line and tissue names are merged to the standard tissue), split into cell line and tissue (patient tumour) contributions.
This shows the cancer-context where this gene is recurrently altered.
GTEx Expression
Median TPM across 54 healthy tissues
Median gene expression (TPM) in normal, non-cancer human tissues from the GTEx project.
Useful for judging tumour specificity – a strong neoantigen target ideally comes from a gene with low expression in healthy tissues.
Scroll or drag the mini-axis below the chart to browse all tissues.
Mutations
All 11,589 mutations in CHD4
Every mutation record for this gene, across all samples and sources.
The Sample column links to the cell line (cell-line samples) or the tissue type (tissue samples).
Use the Type / Source filters, the search box, and column sorting to explore; each CAN-IMMUNE ID opens the full mutation & peptide view.
| ID | Sample | Transcript | AA Change | CDS | Type | Source | Mutant Peptide | Wild-type Peptide |
|---|